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738
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Getting the mRNA sequence from genome annotation
sequence gene Assembly
updated 3.7 years ago by 14k • written 3.7 years ago by ★ 1.1k
0
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0
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1.3k
views
Answer: A: Enrichment Analysis in DAVID
4.0 years ago by colin.kern ★ 1.1k
3
votes
6
replies
7.4k
views
Difference between Ensembl annotation GTF and GFF3 files
ensembl genome annotation
updated 18 months ago by 43k • written 8.7 years ago by ★ 1.1k
2
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0
replies
1.0k
views
How to query a hic file for whether two regions contact
hi-c juicer
updated 4.1 years ago by 20 • written 4.2 years ago by ★ 1.1k
0
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1
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1.4k
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Comment: C: Finding the cause for corrupt ChIP-Seq data
4.1 years ago by colin.kern ★ 1.1k
1
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1
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3.8k
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Comment: C: bamCompare output values ChIP/input normalization
4.1 years ago by colin.kern ★ 1.1k
0
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1
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3.8k
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Comment: C: bamCompare output values ChIP/input normalization
4.1 years ago by colin.kern ★ 1.1k
2
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1
reply
3.8k
views
Answer: A: bamCompare output values ChIP/input normalization
4.1 years ago by colin.kern ★ 1.1k
0
votes
0
replies
950
views
Can't find documentation about output of homer2 find command
homer motif enrichment
4.1 years ago by colin.kern ★ 1.1k
2
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1
reply
2.4k
views
Answer: A: deeptools plotProfile plots inconsistently
4.1 years ago by colin.kern ★ 1.1k
1
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1
reply
1.9k
views
Answer: A: Can I use DESeq2 for non-coding RNA?
4.2 years ago by colin.kern ★ 1.1k
1
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1
reply
1.0k
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Answer: A: Replacing BAM reference
4.2 years ago by colin.kern ★ 1.1k
1
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0
replies
4.8k
views
Comment: C: How to visualize narrowPeak file after peak calling using MACS?
4.2 years ago by colin.kern ★ 1.1k
0
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1
reply
4.8k
views
Comment: C: How to visualize narrowPeak file after peak calling using MACS?
4.2 years ago by colin.kern ★ 1.1k
1
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0
replies
2.1k
views
Comment: C: How to remove lines/headers from a SAM file after combined from different lanes
4.2 years ago by colin.kern ★ 1.1k
0
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0
replies
4.8k
views
Comment: C: How to visualize narrowPeak file after peak calling using MACS?
4.2 years ago by colin.kern ★ 1.1k
2
votes
1
reply
4.8k
views
Answer: A: How to visualize narrowPeak file after peak calling using MACS?
4.2 years ago by colin.kern ★ 1.1k
3
votes
0
replies
1.8k
views
Answer: A: How to assemble viral genomes when my data contains host DNA as well
4.2 years ago by colin.kern ★ 1.1k
1
vote
0
replies
1.9k
views
Answer: C: RNAseq read counts generated by FeatureCounts
4.4 years ago by colin.kern ★ 1.1k
2
votes
0
replies
4.1k
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Answer: A: Thousands of significant differentially expressed genes but no significant enric
4.4 years ago by colin.kern ★ 1.1k
0
votes
0
replies
1.5k
views
Comment: C: Want read count with respect to geneID instead of transcript IDs
4.4 years ago by colin.kern ★ 1.1k
3
votes
1
reply
1.5k
views
Answer: A: Want read count with respect to geneID instead of transcript IDs
4.4 years ago by colin.kern ★ 1.1k
2
votes
0
replies
692
views
Answer: A: What is -e in trim_galore
4.4 years ago by colin.kern ★ 1.1k
2
votes
0
replies
1.4k
views
Answer: A: Interpretation of RNA seq pipeline in a paper
4.4 years ago by colin.kern ★ 1.1k
0
votes
0
replies
932
views
Comment: C: Why is the pValue peaks very high in EpigenomeRoadMap data.
4.4 years ago by colin.kern ★ 1.1k
0
votes
0
replies
1.1k
views
Comment: C: GC bias correction for Chip-SEQ
4.5 years ago by colin.kern ★ 1.1k
1
vote
0
replies
1.3k
views
Answer: A: Chip-Seq macs2 peak calling
4.5 years ago by colin.kern ★ 1.1k
2
votes
1
reply
932
views
Answer: A: Why is the pValue peaks very high in EpigenomeRoadMap data.
4.5 years ago by colin.kern ★ 1.1k
5
votes
1
reply
1.5k
views
Answer: A: Effect of gene size on WGCNA
4.5 years ago by colin.kern ★ 1.1k
0
votes
0
replies
1.8k
views
Answer: A: Different number of peaks between biological replicates?
4.5 years ago by colin.kern ★ 1.1k
2
votes
1
reply
1.0k
views
Answer: A: Detection of ncRNA in RNAseq transcript expression Data: lncRNA vs lincRNA
4.5 years ago by colin.kern ★ 1.1k
1
vote
0
replies
1.3k
views
Comment: C: MACS2 "total fragments in treatment" gives less number of fragments than expecte
4.5 years ago by colin.kern ★ 1.1k
5
votes
0
replies
7.4k
views
Answer: A: Why you shouldn't normalize count data using gene-length AND library size for co
4.5 years ago by colin.kern ★ 1.1k
1
vote
0
replies
3.9k
views
Comment: C: Which one to use for ChipSeq replicate comparison: Spearman or Pearson
4.5 years ago by colin.kern ★ 1.1k
2
votes
2
replies
3.9k
views
Answer: A: Which one to use for ChipSeq replicate comparison: Spearman or Pearson
4.5 years ago by colin.kern ★ 1.1k
1
vote
0
replies
1.5k
views
Answer: A: Visualizing bigwig tracks
4.5 years ago by colin.kern ★ 1.1k
0
votes
0
replies
1.3k
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Comment: C: Do all samples in SRA have a corresponding sample in BioSample?
4.5 years ago by colin.kern ★ 1.1k
1
vote
0
replies
7.6k
views
Comment: C: Difference between abundance and counts
4.5 years ago by colin.kern ★ 1.1k
0
votes
1
reply
1.9k
views
Comment: C: One question about featureCounts
4.5 years ago by colin.kern ★ 1.1k
2
votes
0
replies
830
views
Comment: C: How do I determine if an mRNA was made with strand or non strand method?
4.6 years ago by colin.kern ★ 1.1k
0
votes
0
replies
810
views
Should I remove incomplete bisulfite conversion in the BSSeeker2 call step?
methylation rrbs
4.6 years ago by colin.kern ★ 1.1k
2
votes
1
reply
2.6k
views
Comment: C: differences between featureCounts and htseq-count
4.6 years ago by colin.kern ★ 1.1k
0
votes
0
replies
1.2k
views
Comment: C: Minimal mapping score of bowtie2
4.6 years ago by colin.kern ★ 1.1k
1
vote
1
reply
3.7k
views
Comment: C: is 0-based start and 1-based end of bed format not compatible with htseq-count?
4.6 years ago by colin.kern ★ 1.1k
1
vote
1
reply
1.3k
views
Answer: A: How can I add Sample Identifier to paired fastq file names
4.6 years ago by colin.kern ★ 1.1k
1
vote
1
reply
3.7k
views
Answer: A: is 0-based start and 1-based end of bed format not compatible with htseq-count?
4.6 years ago by colin.kern ★ 1.1k
1
vote
1
reply
2.6k
views
Comment: C: Advice on Handling Batch Effect in ChIP-seq Experiment
4.6 years ago by colin.kern ★ 1.1k
2
votes
1
reply
2.6k
views
Answer: A: Advice on Handling Batch Effect in CHiP-seq Experiment
4.6 years ago by colin.kern ★ 1.1k
0
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0
replies
1.5k
views
Comment: C: ChIP-seq heatmaps using binding site of an specific protein as a reference
4.6 years ago by colin.kern ★ 1.1k
1
vote
1
reply
2.7k
views
Answer: A: Computing the significance of overlapping ChIP-seq peaks
4.6 years ago by colin.kern ★ 1.1k
123 results • Page 1 of 3
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